Re: OSCAR 10.12 has been packaged

2012-07-30 Thread Andreas Tille
Hi Peter, thanks for the short update about Oscar development. On Sun, Jul 29, 2012 at 08:26:45AM -0400, Peter Hutten-Czapski wrote: ... For now I release things that look like debs at sourceforge. (apologies to any conventions slurred in the process)

bowtie2 messed up git repository

2012-07-30 Thread Alex Mestiashvili
Hi All, Could you please suggest what is better in the following case: 2 weeks ago I imported the new upstream (2.0.0-beta7) version of bowtie2 to the repository, but than I decided to revert back to the old commit. Here is the discussion why I decided so [0]. After all I used push --force to

fixing rc-version-greater-than-expected-version

2012-07-30 Thread Alex Mestiashvili
Hi All, I just imported the new upstream version for bowtie2 and now lintian gives me the following warning: N: Processing binary package bowtie2 (version 2.0.0-beta7-1, arch i386) ... W: bowtie2: rc-version-greater-than-expected-version 2.0.0-beta7 2.0.0 (consider using 2.0.0~beta7) In

Re: OSCAR 10.12 has been packaged

2012-07-30 Thread Peter Hutten-Czapski
Thank you for your kind words and encouragement Our source is in GIT and we reveal the source of our trunk stable (not really but not badly unstable) and releases on Sourceforge (we use a different repository for submission and vetting of code) I have not packaged the source, and would have to

Re: fixing rc-version-greater-than-expected-version

2012-07-30 Thread Andreas Tille
On Mon, Jul 30, 2012 at 02:49:36PM +0200, Alex Mestiashvili wrote: I just imported the new upstream version for bowtie2 and now lintian gives me the following warning: N: Processing binary package bowtie2 (version 2.0.0-beta7-1, arch i386) ... W: bowtie2:

soapdenovo packaging

2012-07-30 Thread Olivier Sallou
Hi, I plan to package soapdenovo, hwich is in DebianMed tasks. I have seen some previous mail exchanges by Andreas in Fed 2011 [0]. As license is GPL 3+ now, is there anything that prevented packaging ? Or should I simply go with an ITP? [0]

Re: fixing rc-version-greater-than-expected-version

2012-07-30 Thread Alex Mestiashvili
On 07/30/2012 04:17 PM, Andreas Tille wrote: On Mon, Jul 30, 2012 at 02:49:36PM +0200, Alex Mestiashvili wrote: I just imported the new upstream version for bowtie2 and now lintian gives me the following warning: N: Processing binary package bowtie2 (version 2.0.0-beta7-1, arch i386) ...

ITP: soapdenovo -- short-read assembly method that can build a de novo draft assembly for the human-sized genomes

2012-07-30 Thread olivier sallou
-- Forwarded message -- From: Debian Bug Tracking System ow...@bugs.debian.org Date: 2012/7/30 Subject: Bug#683291: Acknowledgement (ITP: soapdenovo -- short-read assembly method that can build a de novo draft assembly for the human-sized genomes) To: Olivier Sallou

Re: OSCAR 10.12 has been packaged

2012-07-30 Thread Andreas Tille
Hi Peter, On Mon, Jul 30, 2012 at 10:09:22AM -0400, Peter Hutten-Czapski wrote: Thank you for your kind words and encouragement No specific thanks for this is needed - we try to entertain a warm and welcoming voice here in the Debian Med team. :-) Our source is in GIT and we reveal the source

Re: fixing rc-version-greater-than-expected-version

2012-07-30 Thread Andreas Tille
On Mon, Jul 30, 2012 at 05:08:36PM +0200, Alex Mestiashvili wrote: $ dpkg --compare-versions 2.0.0-beta6-1 gt 1:2.0.0 echo $? this depend on the way upstream will call the non-beta version. In case of version clash it is fine for me to start use epochs. But what to do if I want to

Re: soapdenovo packaging

2012-07-30 Thread Andreas Tille
Hi Olivier, On Mon, Jul 30, 2012 at 04:23:25PM +0200, Olivier Sallou wrote: I have seen some previous mail exchanges by Andreas in Fed 2011 [0]. As license is GPL 3+ now, is there anything that prevented packaging ? Or should I simply go with an ITP? Sure - just go on. Kind regards

Re: soapdenovo packaging

2012-07-30 Thread Andreas Tille
Hi again, after sending this mail I just noticed that you just took action even before - that's great! One thing I would like to see if you could find some publication data and inject these in debian/upstream file. Thanks for your work on this Andreas. On Mon, Jul 30, 2012 at

Re: OSCAR 10.12 has been packaged

2012-07-30 Thread Peter Hutten-Czapski
I confess that I build debs manually by just compressing a file structure Peter Hutten-Czapski Haileybury Ontario The attitude that ‘if rural people want these services they’ll have to come to the city to get them’ is simply not acceptable…” (Newbery, 1999) Before printing,

Re: Comments regarding cnrun_1.1.12-1_amd64.changes; sponsor upload 1.1.13-1

2012-07-30 Thread andrei zavada
Hi Luca, Yaroslav, Thanks for the bunch of pertinent remarks. I really learned a thing or two about Debian process as I went through them one by one. Here's hoping the way I dealt with them is satisfactory. For details, you can check the current state in... oops... For some reason, even after

Re: fixing rc-version-greater-than-expected-version

2012-07-30 Thread Charles Plessy
On Mon, Jul 30, 2012 at 02:49:36PM +0200, Alex Mestiashvili wrote: N: Processing binary package bowtie2 (version 2.0.0-beta7-1, arch i386) ... W: bowtie2: rc-version-greater-than-expected-version 2.0.0-beta7 2.0.0 (consider using 2.0.0~beta7) Le Mon, Jul 30, 2012 at 04:17:14PM +0200,

Re: Comments regarding cnrun_1.1.12-1_amd64.changes; sponsor upload 1.1.13-1

2012-07-30 Thread Yaroslav Halchenko
1. On Tue, 31 Jul 2012, andrei zavada wrote: state in... oops... For some reason, even after I did as instructed on http://wiki.debian.org/Alioth/Git#Repository_maintenance, this URL http://anonscm.debian.org/gitweb/?p=users/hmmr-guest/cnrun.git points to nowhere, and

Re: OSCAR 10.12 has been packaged

2012-07-30 Thread Andreas Tille
On Mon, Jul 30, 2012 at 04:47:11PM -0400, Peter Hutten-Czapski wrote: I confess that I build debs manually by just compressing a file structure I really wished that the descriptions to do it that way would vanish from the internet for good. :-( These are always tricking beginners who for some